RMLC_METTH
ID RMLC_METTH Reviewed; 185 AA.
AC O27818;
DT 13-JUL-2010, integrated into UniProtKB/Swiss-Prot.
DT 01-JAN-1998, sequence version 1.
DT 03-AUG-2022, entry version 128.
DE RecName: Full=dTDP-4-dehydrorhamnose 3,5-epimerase {ECO:0000305|PubMed:10827167};
DE EC=5.1.3.13 {ECO:0000269|PubMed:10827167};
DE AltName: Full=Thymidine diphospho-4-keto-rhamnose 3,5-epimerase {ECO:0000305|PubMed:10827167};
DE AltName: Full=dTDP-4-keto-6-deoxyglucose 3,5-epimerase {ECO:0000303|PubMed:10827167};
DE AltName: Full=dTDP-6-deoxy-D-xylo-4-hexulose 3,5-epimerase {ECO:0000305|PubMed:10827167};
DE AltName: Full=dTDP-L-rhamnose synthase {ECO:0000305|PubMed:10827167};
GN Name=rmlC; OrderedLocusNames=MTH_1790;
OS Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM
OS 10044 / NBRC 100330 / Delta H) (Methanobacterium thermoautotrophicum).
OC Archaea; Euryarchaeota; Methanomada group; Methanobacteria;
OC Methanobacteriales; Methanobacteriaceae; Methanothermobacter.
OX NCBI_TaxID=187420;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H;
RX PubMed=9371463; DOI=10.1128/jb.179.22.7135-7155.1997;
RA Smith D.R., Doucette-Stamm L.A., Deloughery C., Lee H.-M., Dubois J.,
RA Aldredge T., Bashirzadeh R., Blakely D., Cook R., Gilbert K., Harrison D.,
RA Hoang L., Keagle P., Lumm W., Pothier B., Qiu D., Spadafora R., Vicare R.,
RA Wang Y., Wierzbowski J., Gibson R., Jiwani N., Caruso A., Bush D.,
RA Safer H., Patwell D., Prabhakar S., McDougall S., Shimer G., Goyal A.,
RA Pietrovski S., Church G.M., Daniels C.J., Mao J.-I., Rice P., Noelling J.,
RA Reeve J.N.;
RT "Complete genome sequence of Methanobacterium thermoautotrophicum deltaH:
RT functional analysis and comparative genomics.";
RL J. Bacteriol. 179:7135-7155(1997).
RN [2]
RP X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS) IN COMPLEX WITH SUBSTRATE ANALOG,
RP FUNCTION IN DTDP-RHAMNOSE BIOSYNTHESIS, CATALYTIC ACTIVITY, ACTIVE SITE,
RP AND SUBUNIT.
RX PubMed=10827167; DOI=10.1074/jbc.c000238200;
RA Christendat D., Saridakis V., Dharamsi A., Bochkarev A., Pai E.F.,
RA Arrowsmith C.H., Edwards A.M.;
RT "Crystal structure of dTDP-4-keto-6-deoxy-D-hexulose 3,5-epimerase from
RT Methanobacterium thermoautotrophicum complexed with dTDP.";
RL J. Biol. Chem. 275:24608-24612(2000).
CC -!- FUNCTION: Catalyzes the epimerization of the C3' and C5'positions of
CC dTDP-6-deoxy-D-xylo-4-hexulose, forming dTDP-6-deoxy-L-lyxo-4-hexulose.
CC {ECO:0000269|PubMed:10827167}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=dTDP-4-dehydro-6-deoxy-alpha-D-glucose = dTDP-4-dehydro-beta-
CC L-rhamnose; Xref=Rhea:RHEA:16969, ChEBI:CHEBI:57649,
CC ChEBI:CHEBI:62830; EC=5.1.3.13;
CC Evidence={ECO:0000269|PubMed:10827167};
CC -!- PATHWAY: Carbohydrate biosynthesis; dTDP-L-rhamnose biosynthesis.
CC {ECO:0000250|UniProtKB:P26394}.
CC -!- SUBUNIT: Homodimer. {ECO:0000269|PubMed:10827167}.
CC -!- SIMILARITY: Belongs to the dTDP-4-dehydrorhamnose 3,5-epimerase family.
CC {ECO:0000305}.
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DR EMBL; AE000666; AAB86256.1; -; Genomic_DNA.
DR PIR; B69106; B69106.
DR RefSeq; WP_010877392.1; NC_000916.1.
DR PDB; 1EP0; X-ray; 1.50 A; A=1-185.
DR PDB; 1EPZ; X-ray; 1.75 A; A=1-185.
DR PDBsum; 1EP0; -.
DR PDBsum; 1EPZ; -.
DR AlphaFoldDB; O27818; -.
DR SMR; O27818; -.
DR EnsemblBacteria; AAB86256; AAB86256; MTH_1790.
DR GeneID; 1470875; -.
DR KEGG; mth:MTH_1790; -.
DR PATRIC; fig|187420.15.peg.1745; -.
DR HOGENOM; CLU_090940_1_1_2; -.
DR OMA; RGVFLEW; -.
DR UniPathway; UPA00124; -.
DR EvolutionaryTrace; O27818; -.
DR Proteomes; UP000005223; Chromosome.
DR GO; GO:0008830; F:dTDP-4-dehydrorhamnose 3,5-epimerase activity; NAS:UniProtKB.
DR GO; GO:0019305; P:dTDP-rhamnose biosynthetic process; IEA:UniProtKB-UniPathway.
DR GO; GO:0045226; P:extracellular polysaccharide biosynthetic process; NAS:UniProtKB.
DR Gene3D; 2.60.120.10; -; 1.
DR InterPro; IPR000888; dTDP_sugar_isom.
DR InterPro; IPR014710; RmlC-like_jellyroll.
DR InterPro; IPR011051; RmlC_Cupin_sf.
DR PANTHER; PTHR21047; PTHR21047; 1.
DR Pfam; PF00908; dTDP_sugar_isom; 1.
DR SUPFAM; SSF51182; SSF51182; 1.
DR TIGRFAMs; TIGR01221; rmlC; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Carbohydrate metabolism; Isomerase; Reference proteome.
FT CHAIN 1..185
FT /note="dTDP-4-dehydrorhamnose 3,5-epimerase"
FT /id="PRO_0000395351"
FT ACT_SITE 64
FT /note="Proton acceptor"
FT /evidence="ECO:0000305|PubMed:10827167"
FT ACT_SITE 133
FT /note="Proton donor"
FT /evidence="ECO:0000250|UniProtKB:Q9HU21"
FT BINDING 26
FT /ligand="substrate"
FT /evidence="ECO:0000250|UniProtKB:Q9HU21"
FT BINDING 31
FT /ligand="substrate"
FT /evidence="ECO:0000250|UniProtKB:Q9HU21"
FT BINDING 49..51
FT /ligand="substrate"
FT /evidence="ECO:0000269|PubMed:10827167,
FT ECO:0007744|PDB:1EPZ"
FT BINDING 61
FT /ligand="substrate"
FT /evidence="ECO:0000269|PubMed:10827167,
FT ECO:0007744|PDB:1EPZ"
FT BINDING 73
FT /ligand="substrate"
FT /evidence="ECO:0000250|UniProtKB:Q9HU21"
FT BINDING 120
FT /ligand="substrate"
FT /evidence="ECO:0000250|UniProtKB:Q9HU21"
FT BINDING 144
FT /ligand="substrate"
FT /evidence="ECO:0000250|UniProtKB:Q9HU21"
FT BINDING 171
FT /ligand="substrate"
FT /evidence="ECO:0000250|UniProtKB:Q9HU21"
FT SITE 139
FT /note="Participates in a stacking interaction with the
FT thymidine ring of dTDP-4-oxo-6-deoxyglucose"
FT /evidence="ECO:0000250|UniProtKB:Q5SFD1"
FT STRAND 4..8
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 15..19
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 21..24
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 27..30
FT /evidence="ECO:0007829|PDB:1EP0"
FT HELIX 35..40
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 49..56
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 59..69
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 73..88
FT /evidence="ECO:0007829|PDB:1EP0"
FT TURN 94..97
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 99..105
FT /evidence="ECO:0007829|PDB:1EP0"
FT TURN 106..108
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 111..114
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 118..124
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 126..137
FT /evidence="ECO:0007829|PDB:1EP0"
FT HELIX 141..143
FT /evidence="ECO:0007829|PDB:1EP0"
FT STRAND 144..146
FT /evidence="ECO:0007829|PDB:1EP0"
FT TURN 152..154
FT /evidence="ECO:0007829|PDB:1EP0"
FT HELIX 160..162
FT /evidence="ECO:0007829|PDB:1EP0"
FT HELIX 170..173
FT /evidence="ECO:0007829|PDB:1EP0"
FT TURN 178..180
FT /evidence="ECO:0007829|PDB:1EP0"
SQ SEQUENCE 185 AA; 21678 MW; E321B0D881834139 CRC64;
MAEFRFIKTS LDGAIIIEPE VYTDERGYFM ETFNEAIFQE NGLEVRFVQD NESMSVRGVL
RGLHFQREKP QGKLVRVIRG EIFDVAVDLR KNSDTYGEWT GVRLSDENRR EFFIPEGFAH
GFLALSDECI VNYKCTELYH PEYDSGIPWD DPDIGIDWPL EMVDDLIISE KDRNWKPLRE
NPVYL
